Best TWAS P=3.93e-172 · Best GWAS P=9.7e-171 conditioned to 1
| # | Study | Tissue | Gene | h2 | eQTL R2 | model | # weights | model R2 | model R2 P | eQTL GWAS Z | TWAS Z | TWAS P | Top SNP corr | PP3 | PP4 | joint |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | CommonMind | Brain Pre-frontal Cortex | CELSR2 | 0.03 | 0.00 | lasso | 10 | 0.01 | 1.5e-02 | -21.600 | 17.1 | 1.9e-65 | -0.59 | 0.10 | 0.33 | FALSE |
| 2 | CommonMind | Brain Pre-frontal Cortex | PSRC1 | 0.20 | 0.04 | lasso | 8 | 0.13 | 4.8e-16 | 5.200 | -16.6 | 4.2e-62 | 0.63 | 0.02 | 0.98 | FALSE |
| 3 | GTEx | Brain Caudate basal ganglia | AMIGO1 | 0.17 | 0.00 | enet | 10 | 0.00 | 4.4e-01 | 5.010 | -5.6 | 2.6e-08 | 0.08 | 0.09 | 0.08 | FALSE |
| 4 | GTEx | Brain Cerebellar Hemisphere | SYPL2 | 0.28 | 0.04 | lasso | 5 | 0.09 | 2.7e-03 | -6.420 | -7.4 | 1.0e-13 | 0.19 | 0.44 | 0.16 | FALSE |
| 5 | GTEx | Brain Cerebellar Hemisphere | ATXN7L2 | 0.24 | -0.01 | enet | 9 | -0.01 | 5.3e-01 | -2.440 | -6.0 | 1.6e-09 | 0.15 | 0.05 | 0.11 | FALSE |
| 6 | GTEx | Brain Cerebellum | SYPL2 | 0.16 | 0.02 | enet | 9 | 0.03 | 5.1e-02 | -6.520 | -6.6 | 4.2e-11 | 0.15 | 0.36 | 0.03 | FALSE |
| 7 | GTEx | Breast Mammary Tissue (Male) | AMIGO1 | 0.21 | 0.10 | lasso | 2 | 0.12 | 8.4e-04 | -4.380 | -5.8 | 5.7e-09 | 0.17 | 0.08 | 0.06 | FALSE |
| 8 | GTEx | Cells Transformed fibroblasts | GPSM2 | 0.12 | 0.00 | enet | 24 | 0.01 | 5.6e-02 | 0.814 | 12.1 | 6.4e-34 | -0.39 | 0.05 | 0.38 | FALSE |
| 9 | GTEx | Colon Sigmoid | TMEM167B | 0.26 | 0.01 | enet | 37 | 0.01 | 1.4e-01 | -6.280 | 8.6 | 1.1e-17 | -0.16 | 0.18 | 0.18 | TRUE |
| 10 | GTEx | Colon Transverse | STXBP3 | 0.26 | 0.09 | enet | 26 | 0.07 | 3.7e-04 | 0.783 | -5.5 | 3.4e-08 | 0.18 | 0.93 | 0.01 | TRUE |
| 11 | GTEx | Esophagus Mucosa | GPSM2 | 0.17 | 0.02 | enet | 34 | 0.07 | 1.5e-05 | -0.912 | -8.5 | 1.6e-17 | 0.22 | 0.50 | 0.09 | FALSE |
| 12 | GTEx | Esophagus Mucosa | PSRC1 | 0.18 | 0.14 | lasso | 3 | 0.14 | 2.4e-09 | -27.700 | -27.9 | 3.8e-171 | 0.96 | 0.01 | 0.99 | FALSE |
| 13 | GTEx | Esophagus Mucosa | SORT1 | 0.20 | 0.07 | lasso | 6 | 0.04 | 6.7e-04 | -2.720 | -5.8 | 6.5e-09 | 0.29 | 0.19 | 0.20 | FALSE |
| 14 | GTEx | Heart Atrial Appendage | RP5-1065J22.8 | 0.29 | 0.00 | enet | 29 | 0.11 | 1.5e-05 | -4.400 | -11.6 | 5.6e-31 | 0.41 | 0.06 | 0.15 | TRUE |
| 15 | GTEx | Heart Left Ventricle | AMIGO1 | 0.27 | 0.10 | enet | 24 | 0.12 | 4.2e-07 | -4.350 | -5.9 | 2.8e-09 | 0.09 | 0.98 | 0.00 | FALSE |
| 16 | GTEx | Liver | SYPL2 | 0.34 | 0.27 | lasso | 5 | 0.30 | 4.6e-09 | -6.420 | -11.9 | 1.8e-32 | 0.38 | 0.81 | 0.12 | FALSE |
| 17 | GTEx | Liver | CELSR2 | 0.39 | 0.36 | lasso | 1 | 0.35 | 1.0e-10 | -27.700 | -27.7 | 4.2e-169 | 1.00 | 0.01 | 0.99 | FALSE |
| 18 | GTEx | Liver | ATXN7L2 | 0.39 | 0.04 | lasso | 12 | 0.21 | 1.3e-06 | -7.110 | -20.4 | 2.5e-92 | 0.70 | 0.07 | 0.80 | FALSE |
| 19 | GTEx | Liver | AMIGO1 | 0.28 | 0.13 | lasso | 7 | 0.15 | 6.9e-05 | -4.380 | -6.8 | 8.7e-12 | 0.16 | 0.27 | 0.09 | TRUE |
| 20 | GTEx | Muscle Skeletal | CELSR2 | 0.41 | 0.31 | lasso | 4 | 0.30 | 2.4e-30 | -27.700 | -27.5 | 4.7e-167 | 0.99 | 0.04 | 0.96 | FALSE |
| 21 | GTEx | Muscle Skeletal | CYB561D1 | 0.07 | 0.00 | lasso | 3 | 0.00 | 7.2e-01 | -7.080 | 6.6 | 3.4e-11 | -0.18 | 0.31 | 0.02 | FALSE |
| 22 | GTEx | Muscle Skeletal | AMIGO1 | 0.16 | 0.09 | lasso | 9 | 0.08 | 5.7e-08 | -4.350 | -6.8 | 9.4e-12 | 0.18 | 1.00 | 0.00 | FALSE |
| 23 | GTEx | Nerve Tibial | SYPL2 | 0.09 | 0.00 | enet | 27 | 0.05 | 1.9e-04 | -13.000 | 9.9 | 4.4e-23 | -0.34 | 0.09 | 0.25 | FALSE |
| 24 | GTEx | Ovary | SYPL2 | 0.39 | 0.44 | lasso | 5 | 0.46 | 8.8e-13 | -7.210 | 7.0 | 2.7e-12 | -0.17 | 1.00 | 0.00 | FALSE |
| 25 | GTEx | Ovary | ATXN7L2 | 0.18 | 0.18 | enet | 17 | 0.13 | 5.6e-04 | -6.490 | 6.6 | 3.5e-11 | -0.16 | 0.46 | 0.04 | FALSE |
| 26 | GTEx | Pituitary | GPSM2 | 0.27 | 0.04 | lasso | 5 | 0.10 | 2.2e-03 | -0.035 | 8.6 | 1.0e-17 | -0.23 | 0.03 | 0.45 | FALSE |
| 27 | GTEx | Pituitary | GSTM1 | 0.40 | -0.01 | enet | 24 | 0.05 | 1.7e-02 | -10.900 | -6.4 | 1.3e-10 | 0.25 | 0.06 | 0.12 | FALSE |
| 28 | GTEx | Pituitary | AC000032.2 | 0.36 | -0.01 | enet | 1 | 0.05 | 1.8e-02 | -10.900 | -10.9 | 7.9e-28 | 0.46 | 0.05 | 0.12 | FALSE |
| 29 | GTEx | Prostate | RP11-20O24.4 | 0.33 | 0.01 | enet | 30 | 0.13 | 3.2e-04 | -7.790 | -7.8 | 5.9e-15 | 0.37 | 0.04 | 0.32 | FALSE |
| 30 | GTEx | Skin Sun Exposed Lower leg | CELSR2 | 0.18 | 0.05 | lasso | 6 | 0.06 | 8.1e-06 | -23.900 | -23.4 | 1.0e-120 | 0.75 | 0.01 | 0.97 | FALSE |
| 31 | GTEx | Skin Sun Exposed Lower leg | RP5-1160K1.3 | 0.08 | 0.02 | lasso | 3 | 0.04 | 3.7e-04 | -13.000 | 7.9 | 2.2e-15 | -0.27 | 0.15 | 0.15 | FALSE |
| 32 | GTEx | Small Intestine Terminal Ileum | GSTM3 | 0.78 | 0.30 | enet | 26 | 0.42 | 1.9e-10 | 1.850 | -6.1 | 1.1e-09 | 0.19 | 0.57 | 0.12 | FALSE |
| 33 | GTEx | Small Intestine Terminal Ileum | RP4-735C1.4 | 0.74 | 0.31 | enet | 47 | 0.43 | 6.9e-11 | 1.720 | -7.1 | 1.4e-12 | 0.26 | 0.40 | 0.17 | FALSE |
| 34 | GTEx | Stomach | SYPL2 | 0.23 | 0.18 | lasso | 8 | 0.21 | 2.3e-10 | -6.420 | -6.3 | 3.3e-10 | 0.10 | 1.00 | 0.00 | FALSE |
| 35 | GTEx | Testis | SYPL2 | 0.45 | 0.50 | enet | 22 | 0.54 | 5.0e-28 | -6.720 | 7.0 | 1.9e-12 | -0.18 | 1.00 | 0.00 | FALSE |
| 36 | GTEx | Testis | ATXN7L2 | 0.28 | 0.34 | lasso | 4 | 0.33 | 3.7e-15 | -6.570 | 6.7 | 1.7e-11 | -0.17 | 1.00 | 0.00 | FALSE |
| 37 | GTEx | Thyroid | PSRC1 | 0.29 | 0.25 | lasso | 3 | 0.25 | 3.6e-19 | 1.770 | -7.2 | 4.3e-13 | 0.33 | 1.00 | 0.00 | FALSE |
| 38 | GTEx | Uterus | SYPL2 | 0.29 | 0.13 | lasso | 7 | 0.04 | 5.1e-02 | -6.500 | 6.0 | 2.7e-09 | -0.16 | 0.13 | 0.05 | FALSE |
| 39 | GTEx | Whole Blood | PSRC1 | 0.14 | 0.04 | lasso | 3 | 0.03 | 6.9e-04 | -27.900 | -28.0 | 3.9e-172 | 1.00 | 0.00 | 1.00 | TRUE |
| 40 | METSIM | Adipose | CELSR2 | 0.13 | 0.04 | enet | 28 | 0.06 | 5.0e-09 | 12.700 | 9.3 | 1.0e-20 | -0.22 | 1.00 | 0.00 | FALSE |
| 41 | NTR | Blood | SORT1 | 0.05 | 0.06 | lasso | 6 | 0.06 | 2.1e-17 | -7.210 | -8.2 | 1.8e-16 | 0.20 | 1.00 | 0.00 | FALSE |
| 42 | ROSMAP | Brain Pre-frontal Cortex | GSTM1 | 0.51 | 0.05 | blup | 434 | 0.26 | 1.4e-33 | 1.240 | 7.2 | 4.3e-13 | -0.16 | 1.00 | 0.00 | TRUE |
| 43 | ROSMAP | Brain Pre-frontal Cortex | PSRC1 | 0.33 | 0.21 | bslmm | 430 | 0.26 | 1.2e-32 | -27.700 | -22.1 | 3.9e-108 | 0.82 | 0.00 | 1.00 | FALSE |
| 44 | ROSMAP | Brain Pre-frontal Cortex | CELSR2 | 0.25 | 0.21 | lasso | 6 | 0.23 | 4.9e-29 | -27.700 | -27.3 | 3.3e-164 | 0.96 | 0.00 | 1.00 | FALSE |
| 45 | ROSMAP | Brain Pre-frontal Cortex | ATXN7L2 | 0.07 | 0.06 | enet | 12 | 0.09 | 5.6e-12 | -6.520 | 5.4 | 7.9e-08 | -0.17 | 1.00 | 0.00 | FALSE |
| 46 | ROSMAP | Brain Pre-frontal Cortex | AMIGO1 | 0.08 | 0.03 | blup | 404 | 0.03 | 8.7e-05 | -4.750 | -8.1 | 3.9e-16 | 0.25 | 0.93 | 0.01 | FALSE |
| 47 | YFS | Blood | PSRC1 | 0.25 | 0.18 | enet | 32 | 0.24 | 1.6e-76 | -27.800 | -23.9 | 4.3e-126 | 0.86 | 0.00 | 1.00 | FALSE |
| 48 | The Cancer Genome Atlas | Bladder Urothelial Carcinoma | AMIGO1 | 0.10 | 0.14 | enet | 10 | 0.11 | 2.8e-09 | -4.400 | -6.7 | 2.6e-11 | 0.18 | 1.00 | 0.00 | FALSE |
| 49 | The Cancer Genome Atlas | Breast Invasive Carcinoma | PSRC1 | 0.03 | 0.00 | blup | 49 | 0.02 | 5.7e-05 | -23.900 | -21.0 | 1.2e-97 | 0.80 | 0.02 | 0.88 | FALSE |
| 50 | The Cancer Genome Atlas | Breast Invasive Carcinoma | SYPL2 | 0.06 | 0.07 | blup | 45 | 0.08 | 8.5e-16 | -6.500 | -5.3 | 1.4e-07 | 0.14 | 1.00 | 0.00 | FALSE |
| 51 | The Cancer Genome Atlas | Cervical Squamous Cell Carcinoma | PSRC1 | 0.14 | 0.04 | enet | 13 | 0.07 | 2.7e-04 | -27.800 | -20.6 | 3.2e-94 | 0.73 | 0.01 | 0.74 | TRUE |
| 52 | The Cancer Genome Atlas | Colon Adenocarcinoma | CELSR2 | 0.12 | 0.00 | enet | 21 | 0.04 | 3.0e-03 | -27.900 | -17.2 | 1.4e-66 | 0.58 | 0.00 | 0.76 | FALSE |
| 53 | The Cancer Genome Atlas | Colon Adenocarcinoma | PSRC1 | 0.07 | 0.06 | lasso | 1 | 0.04 | 1.8e-03 | -23.900 | -23.9 | 5.2e-126 | 0.75 | 0.01 | 0.83 | FALSE |
| 54 | The Cancer Genome Atlas | Esophageal Carcinoma | AMIGO1 | 0.24 | 0.08 | blup | 46 | 0.18 | 3.0e-06 | -4.460 | -5.1 | 2.9e-07 | 0.14 | 0.09 | 0.30 | FALSE |
| 55 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | SYPL2 | 0.03 | 0.05 | lasso | 4 | 0.05 | 6.6e-06 | -6.720 | -6.5 | 6.6e-11 | 0.15 | 0.81 | 0.08 | FALSE |
| 56 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | PSRC1 | 0.14 | 0.05 | enet | 6 | 0.08 | 7.5e-09 | 1.770 | -14.4 | 3.8e-47 | 0.50 | 0.16 | 0.62 | FALSE |
| 57 | The Cancer Genome Atlas | Kidney Renal Papillary Cell Carcinoma | PSRC1 | 0.12 | 0.11 | lasso | 4 | 0.09 | 4.5e-06 | -27.300 | -26.8 | 1.1e-157 | 0.92 | 0.01 | 0.99 | FALSE |
| 58 | The Cancer Genome Atlas | Liver Hepatocellular Carcinoma | MYBPHL | 0.09 | 0.07 | blup | 46 | 0.06 | 5.7e-04 | -2.930 | -16.9 | 9.9e-64 | 0.55 | 0.04 | 0.39 | FALSE |
| 59 | The Cancer Genome Atlas | Liver Hepatocellular Carcinoma | PSRC1 | 0.16 | 0.20 | lasso | 3 | 0.19 | 3.7e-09 | -27.400 | -27.5 | 6.6e-166 | 0.95 | 0.01 | 0.99 | FALSE |
| 60 | The Cancer Genome Atlas | Liver Hepatocellular Carcinoma | SORT1 | 0.23 | 0.16 | lasso | 4 | 0.16 | 4.6e-08 | -27.900 | -27.2 | 7.6e-163 | 0.94 | 0.00 | 1.00 | TRUE |
| 61 | The Cancer Genome Atlas | Liver Hepatocellular Carcinoma | SYPL2 | 0.18 | 0.19 | blup | 45 | 0.18 | 4.7e-09 | -6.570 | -5.7 | 1.3e-08 | 0.10 | 0.99 | 0.01 | FALSE |
| 62 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | AMIGO1 | 0.13 | 0.13 | blup | 46 | 0.12 | 1.7e-13 | -4.050 | -6.2 | 4.9e-10 | 0.18 | 1.00 | 0.00 | FALSE |
| 63 | The Cancer Genome Atlas | Ovarian Serous Cystadenocarcinoma | MYBPHL | 0.16 | 0.18 | enet | 10 | 0.17 | 2.3e-11 | -7.300 | -7.5 | 9.5e-14 | 0.17 | 1.00 | 0.00 | FALSE |
| 64 | The Cancer Genome Atlas | Ovarian Serous Cystadenocarcinoma | PSRC1 | 0.07 | 0.03 | enet | 8 | 0.05 | 3.4e-04 | -27.800 | -21.3 | 1.5e-100 | 0.77 | 0.01 | 0.92 | FALSE |
| 65 | The Cancer Genome Atlas | Prostate Adenocarcinoma | PSRC1 | 0.18 | 0.10 | enet | 11 | 0.10 | 1.6e-10 | 1.770 | -8.6 | 6.7e-18 | 0.38 | 1.00 | 0.00 | FALSE |
| 66 | The Cancer Genome Atlas | Prostate Adenocarcinoma | SYPL2 | 0.08 | 0.08 | blup | 44 | 0.10 | 1.9e-10 | -6.280 | -5.3 | 1.0e-07 | 0.10 | 1.00 | 0.00 | FALSE |
| 67 | The Cancer Genome Atlas | Soft Tissue Sarcoma | PSRC1 | 0.09 | 0.00 | blup | 49 | 0.02 | 3.1e-02 | -16.900 | -16.7 | 7.4e-63 | 0.67 | 0.01 | 0.38 | FALSE |
| 68 | The Cancer Genome Atlas | Stomach Adenocarcinoma | CELSR2 | 0.08 | 0.00 | blup | 62 | 0.02 | 8.1e-03 | -7.080 | -16.1 | 2.9e-58 | 0.50 | 0.01 | 0.24 | FALSE |
| 69 | The Cancer Genome Atlas | Stomach Adenocarcinoma | PSRC1 | 0.12 | 0.03 | enet | 6 | 0.08 | 1.5e-06 | -28.000 | -20.4 | 2.4e-92 | 0.76 | 0.00 | 0.99 | FALSE |
| 70 | The Cancer Genome Atlas | Stomach Adenocarcinoma | SORT1 | 0.04 | 0.01 | blup | 60 | 0.03 | 4.4e-03 | -27.900 | -20.3 | 1.0e-91 | 0.64 | 0.01 | 0.79 | FALSE |
| 71 | The Cancer Genome Atlas | Testicular Germ Cell Tumors | AMIGO1 | 0.14 | 0.14 | blup | 46 | 0.14 | 1.1e-05 | -4.350 | -5.5 | 2.8e-08 | 0.14 | 0.38 | 0.39 | FALSE |
| 72 | The Cancer Genome Atlas | Thyroid Carcinoma | ATXN7L2 | 0.06 | 0.06 | lasso | 3 | 0.05 | 6.6e-06 | -6.280 | 6.4 | 1.5e-10 | -0.16 | 0.03 | 0.97 | FALSE |
| 73 | The Cancer Genome Atlas | Thyroid Carcinoma | PSRC1 | 0.11 | 0.08 | enet | 16 | 0.08 | 6.9e-08 | 1.770 | -5.1 | 2.9e-07 | 0.24 | 0.99 | 0.00 | FALSE |
| 74 | The Cancer Genome Atlas | Thyroid Carcinoma | SYPL2 | 0.07 | 0.04 | blup | 45 | 0.03 | 4.9e-04 | -6.280 | 8.5 | 1.4e-17 | -0.26 | 0.57 | 0.27 | FALSE |